Sequence
atgc intronic sequence ATGC exonic sequenceAGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcactcaattctccggagaagcttcttaaaacattcttttttttcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G77590.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os12g07110.2 (Oryza sativa), 5'ss of exon 9
AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcactcaattctccggagaagcttcttaaaacattcttttttttcgcag
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TGACATCGGGCGCTTCCACCCAGATGGCTGCCTTGAAATCATTGACCGTAAAAAGGATATTGTGAAGCTTCAACATGGTGAATATGTGTCTCTCGGGAAGgt-cag------caatagtcatgttctgttcagact--agtagttgttagcccttcttaactgattggaccatcacag----------
upper sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA14G23710.1 (Glycine max), 5'ss of exon 11
-AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatca--ctcaattctccggagaagcttcttaaaacattctttttt---ttcgcag--------
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GTGACATTGGGAGAGTGCATCCAGATGGATGCCTTGAAATCATTGATAGTAAAAAGGACATTGTTAAACTGCAGCATGGAGAATATGTCTCCTTGGGAAAgttatggatattac--ttttgtttttctttagaatttaaaagaagatatgtgttacttagaggactacttaaacttttatttttgggctcttaatagagtta
upper sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA13G03280.1 (Glycine max), 5'ss of exon 9
AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcac-----tcaattctccggagaagcttcttaaaacattcttttttttcgcag--------
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TGACATTGGGAGAGTTCATCCAGATGGATGCCTTGAAATCATTGATCGTAAAAAGGACATTGTTAAACTACAGCACGGAGAATATGTCTCCTTGGGAAAGgtatagatattacttttattagttctttttagattttaaaagaagagatgtgttgttcagagga-ctacttaaacttttattgctaggctcaatatataga
upper sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA06G11860.1 (Glycine max), 5'ss of exon 9
AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtat-agttttctcaatccgaataccctt--ttttgtcttcatcactcaattctccggagaagcttcttaaaacattcttttttttcgcag
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TGACATAGGGAGATTCCATAAAGATGGTTGCCTTGAGATCATTGATAGGAAAAAGGACATAGTTAAACTACAGCATGGAGAATATGTGTCCTTGGGAAAGgtatgaatgttggtttgtggaatgcacttcgtttaatatttaataataattttattaaatacag---------------------------
upper sequence: AT1G77590.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 5'ss of exon 11
AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcactcaattctccggagaagcttcttaaaac----attcttttttttcgcag--------------------
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GGACATAGGGCAGTTTCATGCTGATGGTTGCCTTGAAATAATTGACCGTAGAAAGGACATAGTTAAACTTCAGCATGGAGAATATTTATCTCTAGGAAAGgtatgcatgatgtaaaataatgtttttcgtttttctttccttttcttctcctttgatttttattttattattattacctttttattttttaaactaataccttcctctacagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164045422|gb|ES203585.1|ES203585EST: TATGTCTCCTTGGGCAAA GTTGAAGCTGCTCTAAGTATAAGTCCCTATGTTGAAAACATAATGGTTCAT
genomic: TATGTCTCCTTGGGCAAAgtatagtttt ... tttttcgcagGTTGAAGCTGCTCTAAGTATAAGTCCCTATGTTGAAAACATAATGGTTCAT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGACATAGGACGATTTCACCCTGATGGCTGCCTCGAGATAATAGACCGAAAAAAGGATATCGTTAAACTTCAGCATGGAGAATATGTCTCCTTGGGCAAAgtatagttttctcaatccgaatacccttttttgtcttcatcactcaattctccggagaagcttcttaaaacattcttttttttcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA